Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010247.1 Kokia drynarioides strain JFW-HI SEQ_125079, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 384304
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 26 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1017 original size:37 final size:38
Alignment explanation
Indices: 913--1019 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 38
903 CTTCGACCTT
*
913 GAGTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATA
1 GAGTCGATGAGACACTGGGTGTC---ACTTTACTTCGGATA
* ** * * ** *
954 GATTCGATGAGGTATTAGGTACCACTTTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGTCACTTTACTTCGGATA
992 G-GTCGATGAGACACTGGGTGTCACTTTA
1 GAGTCGATGAGACACTGGGTGTCACTTTA
1020 TTGCTTCGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
37 20 0.40
38 14 0.28
41 16 0.32
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (38 bp):
GAGTCGATGAGACACTGGGTGTCACTTTACTTCGGATA
Found at i:4625 original size:13 final size:13
Alignment explanation
Indices: 4607--4632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4597 TTTTATGTAA
4607 TAATATTTATAGT
1 TAATATTTATAGT
4620 TAATATTTATAGT
1 TAATATTTATAGT
4633 GAAAACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TAATATTTATAGT
Found at i:5970 original size:17 final size:19
Alignment explanation
Indices: 5944--5986 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
5934 CAATAAATTC
5944 AAAATATAAA-ATAA-ACAA
1 AAAATATAAATA-AAGACAA
5962 AAAAT-TAAATAAAGACAA
1 AAAATATAAATAAAGACAA
5980 AAAATAT
1 AAAATAT
5987 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATATAAATAAAGACAA
Found at i:6794 original size:87 final size:89
Alignment explanation
Indices: 6599--6812 Score: 238
Period size: 87 Copynumber: 2.4 Consensus size: 89
6589 TTTGTTTTTT
* *
6599 TTTTTTTTGCACTCAATTGTG-TATTTGAACTATCAAAATGTATCAAAAAAACCCTCAAACTTTT
1 TTTTTTTT-CACTCAATTG-GATACTTGAACTATCAAAATGCATCAAAAAAACCCTCAAACTTTT
* *
6663 AAAAAATAATAATAATTAAGCCCTTG
64 AAAAAATAATAACAATTAAACCCTTG
* * * * * *
6689 TTNTTTTTGCACTCAATTGGATACTTGAACTTTTAAAATGCAT-AAAAAAACCTTCAAATTTTTT
1 TT-TTTTTTCACTCAATTGGATACTTGAACTATCAAAATGCATCAAAAAAACCCTCAAACTTTTA
* **
6753 CAAAA-AA-CGCAATTAAACCCTTG
65 AAAAATAATAACAATTAAACCCTTG
*
6776 ATTTTTTTTCACTCAATTGGATACTTGAACTGTCAAA
1 -TTTTTTTTCACTCAATTGGATACTTGAACTATCAAA
6813 TGTATTGAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
87 43 0.41
88 4 0.04
89 23 0.22
90 30 0.29
91 5 0.05
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.37
Consensus pattern (89 bp):
TTTTTTTTCACTCAATTGGATACTTGAACTATCAAAATGCATCAAAAAAACCCTCAAACTTTTAA
AAAATAATAACAATTAAACCCTTG
Found at i:6941 original size:8 final size:9
Alignment explanation
Indices: 6903--6974 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
6893 GACATTTGAC
*
6903 AAAAACTAT
1 AAAAATTAT
6912 AAAAA--AT
1 AAAAATTAT
*
6919 AAAAATAAAT
1 AAAAAT-TAT
6929 AAAAATTAT
1 AAAAATTAT
6938 AAAAATTATT
1 AAAAATTA-T
**
6948 AAATTTTAAT
1 AAAAATT-AT
*
6958 AAAAAATAT
1 AAAAATTAT
6967 AAAAATTA
1 AAAAATTA
6975 GAAATTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
7 7 0.14
9 24 0.47
10 19 0.37
11 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6941 original size:19 final size:19
Alignment explanation
Indices: 6917--6974 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
6907 ACTATAAAAA
6917 ATAAAAATAAATAAAAATT
1 ATAAAAATAAATAAAAATT
* * **
6936 ATAAAAATTATTAAATTTT
1 ATAAAAATAAATAAAAATT
*
6955 AATAAAAA-ATATAAAAATT
1 -ATAAAAATAAATAAAAATT
6974 A
1 A
6975 GAAATTTTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATAAATAAAAATT
Found at i:6960 original size:29 final size:29
Alignment explanation
Indices: 6926--6993 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
6916 AATAAAAATA
*
6926 AATAAAAATTATAAAAATTATTAAA-TTTT
1 AATAAAAATTATAAAAATTA-GAAATTTTT
*
6955 AATAAAAAATATAAAAATTAGAAATTTTTT
1 AATAAAAATTATAAAAATTAGAAA-TTTTT
6985 AATAAAAAT
1 AATAAAAAT
6994 CGTAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 19 0.56
30 12 0.35
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTAGAAATTTTT
Found at i:7025 original size:40 final size:38
Alignment explanation
Indices: 6957--7032 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 38
6947 TAAATTTTAA
*
6957 TAAAAAATATAAAAATTAGAAATTTTTTAATAAAAATCG
1 TAAAAAATATAAAAATTAGAAATCTTTT-ATAAAAATCG
6996 TAAAAAACTATAAAAAATT-GTAAA-CTTTTATAAAAAT
1 TAAAAAA-TAT-AAAAATTAG-AAATCTTTTATAAAAAT
7033 TATAAAATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 15 0.45
40 8 0.24
41 10 0.30
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (38 bp):
TAAAAAATATAAAAATTAGAAATCTTTTATAAAAATCG
Found at i:7386 original size:31 final size:30
Alignment explanation
Indices: 7339--7396 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
7329 TATTTTCTAA
*
7339 TTTTTAATAAAATTTAAATATTTTTTATTGT
1 TTTTTAATAAAATTT-AATAATTTTTATTGT
* *
7370 TTTTTATTAAACTTTAATAATTTTTAT
1 TTTTTAATAAAATTTAATAATTTTTAT
7397 AACTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTAATAAAATTTAATAATTTTTATTGT
Found at i:7644 original size:91 final size:93
Alignment explanation
Indices: 7535--7707 Score: 242
Period size: 92 Copynumber: 1.9 Consensus size: 93
7525 CAATGGCTTA
* * * * **
7535 AATTGATTTTTTTTGAAAAAGTTTGAGGGT-CTTTTTTTATGCATTTTGAAAGTTTAAGTATTCA
1 AATTGATTTTTTCTGAAAAAGTTTGAGGATACTTTTTTTATACATTTTGAAAGTTCAAGTAACCA
*
7599 ATTTACTGCAAAAAAAAAGTAGAGACTT
66 ATTAACTGCAAAAAAAAAGTAGAGACTT
* *
7627 AATTG-TTTTTTCTGAAAAAGTTTGAGGATATTTTTTTTATACATTTTGATAGTTCAAGTAACCA
1 AATTGATTTTTTCTGAAAAAGTTTGAGGATACTTTTTTTATACATTTTGAAAGTTCAAGTAACCA
*
7691 ATTAAGTGCAAAAAAAA
66 ATTAACTGCAAAAAAAA
7708 TAAAAACAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 22 0.31
92 48 0.69
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (93 bp):
AATTGATTTTTTCTGAAAAAGTTTGAGGATACTTTTTTTATACATTTTGAAAGTTCAAGTAACCA
ATTAACTGCAAAAAAAAAGTAGAGACTT
Found at i:7755 original size:92 final size:89
Alignment explanation
Indices: 7492--7759 Score: 213
Period size: 92 Copynumber: 2.9 Consensus size: 89
7482 ATTATGGGTG
* * *
7492 GTTCAAGTACCCAATT-GTGTATAAAAAAAAAATCA-ATGGCTTAAATTGATTTTTTTTGAAAAA
1 GTTCAAGTAACCAATTAGTGCA-AAAAAAAAAAACAGA-GGCTT-AATTG--TTTTTTTGAAAAA
** *
7555 GTTTGAGGGTCTTTTTTTATGCATTTTGAAA
61 GTTTGAAAG-C-TTTTTTATACATTTTGAAA
* ** * ** *
7586 GTTTAAGTATTCAATTTACTGC--AAAAAAAAAGTAGAGACTTAATTGTTTTTTCTGAAAAAGTT
1 GTTCAAGTAACCAA-TTAGTGCAAAAAAAAAAAACAGAGGCTTAATTGTTTTTT-TGAAAAAGTT
** *
7649 TGAGGATATTTTTTTTATACATTTTGATA
64 TGA--A-AGCTTTTTTATACATTTTGAAA
*
7678 GTTCAAGTAACCAATTAAGTGCAAAAAAAATAAAAACAGAGGCTTAATTGTTTTTTTAAAAAAGT
1 GTTCAAGTAACCAATT-AGTGC-AAAAAAA-AAAAACAGAGGCTTAATTGTTTTTTTGAAAAAGT
7743 TTGAAAGC-TTTTTATAC
63 TTGAAAGCTTTTTTATAC
7760 CTTTAAAACA
Statistics
Matches: 138, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
90 6 0.04
91 24 0.17
92 38 0.28
93 15 0.11
94 12 0.09
95 19 0.14
96 24 0.17
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (89 bp):
GTTCAAGTAACCAATTAGTGCAAAAAAAAAAAACAGAGGCTTAATTGTTTTTTTGAAAAAGTTTG
AAAGCTTTTTTATACATTTTGAAA
Found at i:21271 original size:28 final size:27
Alignment explanation
Indices: 21229--21393 Score: 163
Period size: 28 Copynumber: 5.9 Consensus size: 27
21219 TACTCTAAAC
*
21229 TCTGGCTCGAAAGAGCGTTATTCTGTAT
1 TCTGGCTC-AAAGAGCGATATTCTGTAT
*
21257 TCTGGCTCAAGAGAGTGATATTCTGTAAT
1 TCTGGCTCAA-AGAGCGATATTCTGT-AT
** *
21286 T-TGGCTCCAAAGAATGTTATTCTGTAT
1 TCTGGCT-CAAAGAGCGATATTCTGTAT
*
21313 TCTGGCTCAAGAGAGCAATATTCTGTAT
1 TCTGGCTCAA-AGAGCGATATTCTGTAT
* * *
21341 TTTGGCTCAAAAAAGCGATATTTTGTAT
1 TCTGGCTC-AAAGAGCGATATTCTGTAT
21369 TCTGGCTCGAAAGAGC-ATTATTCTG
1 TCTGGCTC-AAAGAGCGA-TATTCTG
21394 GGTTTGGCGA
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
27 9 0.08
28 97 0.85
29 8 0.07
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGCTCAAAGAGCGATATTCTGTAT
Found at i:21317 original size:56 final size:56
Alignment explanation
Indices: 21231--21393 Score: 204
Period size: 56 Copynumber: 2.9 Consensus size: 56
21221 CTCTAAACTC
* * **
21231 TGGCTCGAAAGAGCGTTATTCTGTATTCTGGCTCAAGAGAGTGATATTCTGTAATT
1 TGGCTCCAAAGAACGTTATTCTGTATTCTGGCTCAAGAGAGCAATATTCTGTAATT
* *
21287 TGGCTCCAAAGAATGTTATTCTGTATTCTGGCTCAAGAGAGCAATATTCTGTATTT
1 TGGCTCCAAAGAACGTTATTCTGTATTCTGGCTCAAGAGAGCAATATTCTGTAATT
* * * *
21343 TGGCT-CAAAAAAGCGATATTTTGTATTCTGGCTCGAA-AGAGCATTATTCTG
1 TGGCTCCAAAGAA-CGTTATTCTGTATTCTGGCTC-AAGAGAGCAATATTCTG
21394 GGTTTGGCGA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
55 6 0.06
56 86 0.91
57 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (56 bp):
TGGCTCCAAAGAACGTTATTCTGTATTCTGGCTCAAGAGAGCAATATTCTGTAATT
Found at i:21375 original size:84 final size:84
Alignment explanation
Indices: 21229--21382 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
21219 TACTCTAAAC
** * * *
21229 TCTGGCTCGAAAGAGCGTTATTCTGTATTCTGGCTCAAGAGAGTGATATTCTGTAATTTGGCTCC
1 TCTGGCTCGAAAGAGCAATATTCTGTATTCTGGCTCAAAAAAGCGATATTCTGTAATTTGGCTCC
21294 AAAGAATGTTATTCTGTAT
66 AAAGAATGTTATTCTGTAT
* *
21313 TCTGGCTC-AAGAGAGCAATATTCTGTATTTTGGCTCAAAAAAGCGATATTTTGT-ATTCTGGCT
1 TCTGGCTCGAA-AGAGCAATATTCTGTATTCTGGCTCAAAAAAGCGATATTCTGTAATT-TGGCT
*
21376 CGAAAGA
64 CCAAAGA
21383 GCATTATTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
83 5 0.08
84 55 0.92
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (84 bp):
TCTGGCTCGAAAGAGCAATATTCTGTATTCTGGCTCAAAAAAGCGATATTCTGTAATTTGGCTCC
AAAGAATGTTATTCTGTAT
Found at i:25598 original size:24 final size:24
Alignment explanation
Indices: 25571--25616 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
25561 ATTTATGATT
25571 AGATTTCATCCCTTTTAACCAATC
1 AGATTTCATCCCTTTTAACCAATC
*
25595 AGATTTCATCCCTTTTGACCAA
1 AGATTTCATCCCTTTTAACCAA
25617 AGGTCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (24 bp):
AGATTTCATCCCTTTTAACCAATC
Found at i:30777 original size:80 final size:80
Alignment explanation
Indices: 30644--30803 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 80
30634 GGCGCAAAAC
** *
30644 TGTTGGTTAATCCAACTAGAGCTGGCCTCACTTATCACGGTTTATTGGCTAGGCACTGGGTGCCA
1 TGTTGGTTAATCCAACTAGAGCTGGCCTCACTTATCACGGTTTATACGCTAGGCACCGGGTGCCA
30709 TGAATTGACGGATTT
66 TGAATTGACGGATTT
* * * *
30724 TGTTGGTTAATCCAGCTAGAGTTGGGCTCACTTATCGCGGTTTATACGCTAGGCACCGGGTGCCA
1 TGTTGGTTAATCCAACTAGAGCTGGCCTCACTTATCACGGTTTATACGCTAGGCACCGGGTGCCA
30789 TGAATTGACGGATTT
66 TGAATTGACGGATTT
30804 GGATACAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (80 bp):
TGTTGGTTAATCCAACTAGAGCTGGCCTCACTTATCACGGTTTATACGCTAGGCACCGGGTGCCA
TGAATTGACGGATTT
Found at i:34185 original size:36 final size:36
Alignment explanation
Indices: 34144--34282 Score: 144
Period size: 36 Copynumber: 4.0 Consensus size: 36
34134 CTGTTCAGAC
* *
34144 AGTAAATGTGTAGGTATGTTATTCATGTCATGTGAT
1 AGTAAATATGTAGGTATGTTATTCATGCCATGTGAT
*
34180 AGTAAATATAT-GAGTATGTTATTCATGCCATGTGAT
1 AGTAAATATGTAG-GTATGTTATTCATGCCATGTGAT
* * *
34216 AGTAAATA---A-GTATGTTATTCATGCCTTGAGAC
1 AGTAAATATGTAGGTATGTTATTCATGCCATGTGAT
** * *
34248 AAAAAATATGTGGGTATGTTATTCATGTCATGTGA
1 AGTAAATATGTAGGTATGTTATTCATGCCATGTGA
34283 CGGTGAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
32 26 0.31
35 1 0.01
36 58 0.68
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (36 bp):
AGTAAATATGTAGGTATGTTATTCATGCCATGTGAT
Found at i:34992 original size:17 final size:18
Alignment explanation
Indices: 34970--35004 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34960 GAAATATTCT
34970 TGTGACT-AATGTGATTA
1 TGTGACTAAATGTGATTA
34987 TGTGACTAAATGTGATTA
1 TGTGACTAAATGTGATTA
35005 ATATGTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
TGTGACTAAATGTGATTA
Found at i:35005 original size:66 final size:66
Alignment explanation
Indices: 34921--35116 Score: 223
Period size: 66 Copynumber: 2.8 Consensus size: 66
34911 TTAAGTACTC
* * * * *
34921 ATGTGATAAATGTAATTAATATGTGATGTGATTAATGTTGAAATATTCTTGTGACTAATGTGATT
1 ATGTGATAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTAACTAATATGATT
34986 -
66 A
34986 ATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTAACTAATATGAT
1 ATGTGA-TAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTAACTAATATGAT
35051 TAA
65 T-A
35054 ATGTGATTAAATGTGACTAGATGTTATTAATATGTGATGTGATAAATGTTGAAATATTCATGT
1 ATGTGA-T-AA----A-T-G-TG--ATTAATATGTGATGTGATAAATGTTGAAATATTCATGT
35117 GATTTTAAGT
Statistics
Matches: 112, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
65 6 0.05
66 54 0.48
68 7 0.06
69 2 0.02
73 1 0.01
74 1 0.01
75 1 0.01
76 2 0.02
78 38 0.34
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (66 bp):
ATGTGATAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTAACTAATATGATT
A
Found at i:35062 original size:10 final size:10
Alignment explanation
Indices: 35047--35091 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
35037 GTAACTAATA
35047 TGATTAAATG
1 TGATTAAATG
35057 TGATTAAATG
1 TGATTAAATG
* *
35067 TGACTAGATG
1 TGATTAAATG
*
35077 TTATTAATATG
1 TGATTAA-ATG
35088 TGAT
1 TGAT
35092 GTGATAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (10 bp):
TGATTAAATG
Found at i:35189 original size:23 final size:23
Alignment explanation
Indices: 35162--35275 Score: 165
Period size: 23 Copynumber: 5.0 Consensus size: 23
35152 AGTAAAATGG
*
35162 TTAAATATTAATGTGATTTATAC
1 TTAAATATTAATGTGATTTATGC
* *
35185 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
35208 TTAAATATTAATGTGATTTGTGT
1 TTAAATATTAATGTGATTTATGC
*
35231 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
35254 TTAAATATTAATATGATTTATG
1 TTAAATATTAATGTGATTTATG
35276 TGATTTGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:35235 original size:46 final size:46
Alignment explanation
Indices: 35162--35371 Score: 222
Period size: 46 Copynumber: 4.3 Consensus size: 46
35152 AGTAAAATGG
* *
35162 TTAAATATTAATGTGATTTATACTTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* * * *
35208 TTAAATATTAATGTGATTTGTGTTTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* * * *
35254 TTAAATATTAATATGATTTATGTGATTTGTGTTTAAATATTAATGTGATTTGTGC
1 TT-AA-A-T-AT-T-A---ATGTGATTTATGCTTAAATATTAATATGATTTATGC
**
35309 TTAAATATTAATGTGATTTATGCTTAAATGCTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
35355 TTAAATATTAGATGTGA
1 TTAAATATTA-ATGTGA
35372 CTAAATGTGA
Statistics
Matches: 142, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
46 82 0.58
47 8 0.06
48 1 0.01
49 2 0.01
50 3 0.02
51 3 0.02
52 2 0.01
53 1 0.01
54 2 0.01
55 38 0.27
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (46 bp):
TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
Found at i:35277 original size:32 final size:32
Alignment explanation
Indices: 35241--35304 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
35231 TTAAATATTA
35241 ATGTGATTTGTGCTTAAATATTAATATGATTT
1 ATGTGATTTGTGCTTAAATATTAATATGATTT
* *
35273 ATGTGATTTGTGTTTAAATATTAATGTGATTT
1 ATGTGATTTGTGCTTAAATATTAATATGATTT
35305 GTGCTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (32 bp):
ATGTGATTTGTGCTTAAATATTAATATGATTT
Found at i:35282 original size:55 final size:55
Alignment explanation
Indices: 35218--35330 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
35208 TTAAATATTA
35218 ATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTT
1 ATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTT
*
35273 ATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTT
1 ATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTT
35328 ATG
1 ATG
35331 CTTAAATGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (55 bp):
ATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTT
Found at i:35302 original size:23 final size:23
Alignment explanation
Indices: 35273--35371 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
35263 AATATGATTT
* *
35273 ATGTGATTTGTGTTTAAATATTA
1 ATGTGATTTATGCTTAAATATTA
*
35296 ATGTGATTTGTGCTTAAATATTA
1 ATGTGATTTATGCTTAAATATTA
**
35319 ATGTGATTTATGCTTAAATGCTA
1 ATGTGATTTATGCTTAAATATTA
*
35342 ATATGATTTATGCTTAAATATTA
1 ATGTGATTTATGCTTAAATATTA
35365 GATGTGA
1 -ATGTGA
35372 CTAAATGTGA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
23 62 0.93
24 5 0.07
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.46
Consensus pattern (23 bp):
ATGTGATTTATGCTTAAATATTA
Found at i:35327 original size:78 final size:78
Alignment explanation
Indices: 35198--35353 Score: 258
Period size: 78 Copynumber: 2.0 Consensus size: 78
35188 AATGTTAATA
* * *
35198 TGATTTATGCTTAAATATTAATGTGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATT
1 TGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATACT
35263 AATATGATTTATG
66 AATATGATTTATG
* * *
35276 TGATTTGTGTTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGCT
1 TGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATACT
35341 AATATGATTTATG
66 AATATGATTTATG
35354 CTTAAATATT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.49
Consensus pattern (78 bp):
TGATTTATGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATACT
AATATGATTTATG
Found at i:35391 original size:21 final size:21
Alignment explanation
Indices: 35361--35402 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35351 ATGCTTAAAT
35361 ATTAGATGTGACTAA-ATGTG
1 ATTAGATGTGACTAATATGTG
*
35381 ATTAGTATGTGATTAATATGTG
1 ATTAG-ATGTGACTAATATGTG
35403 TTGTTCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (21 bp):
ATTAGATGTGACTAATATGTG
Found at i:41171 original size:18 final size:18
Alignment explanation
Indices: 41126--41171 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
41116 CTCCCTTTTA
41126 TCACTTTTATTTCTTTATT
1 TCAC-TTTATTTCTTTATT
*
41145 T-ATTATTATTTCTTTATT
1 TCACT-TTATTTCTTTATT
41163 TCACTTTAT
1 TCACTTTAT
41172 CGAGGACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (18 bp):
TCACTTTATTTCTTTATT
Found at i:50694 original size:2 final size:2
Alignment explanation
Indices: 50689--50715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50679 TATATATATA
50689 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
50716 ATTACTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:54994 original size:22 final size:22
Alignment explanation
Indices: 54969--55011 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
54959 AAAATATTTC
*
54969 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
54991 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
55012 TGATTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:59659 original size:105 final size:105
Alignment explanation
Indices: 59507--59736 Score: 388
Period size: 105 Copynumber: 2.2 Consensus size: 105
59497 CGAGTCCTCG
*
59507 ACAGCTCATGTGAGCAGCATAGTGAGTTGGGAAATGAGAAATGAATCCAAGAATGGATTACAAGC
1 ACAGCTCGTGTGAGCAGCATAGTGAGTTGGGAAATGAGAAATGAATCCAAGAATGGATTACAAGC
*
59572 CCTACGATGATTGGGATTTATGCATAAGTGCATATTCTCA
66 CCTACGATGATTAGGATTTATGCATAAGTGCATATTCTCA
* * *
59612 ATAGCTCGTGTGAGTAGCATTGTGAGTTGGGAAATGAGAAATGAATCCAAGAATGGATTACAAGC
1 ACAGCTCGTGTGAGCAGCATAGTGAGTTGGGAAATGAGAAATGAATCCAAGAATGGATTACAAGC
* * *
59677 CCTACTATGGTTAGGATTTATGCATAAGTGCATATTCTCG
66 CCTACGATGATTAGGATTTATGCATAAGTGCATATTCTCA
59717 ACAGCTCGTGTGAGCAGCAT
1 ACAGCTCGTGTGAGCAGCAT
59737 CATTAGGAGA
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 115 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (105 bp):
ACAGCTCGTGTGAGCAGCATAGTGAGTTGGGAAATGAGAAATGAATCCAAGAATGGATTACAAGC
CCTACGATGATTAGGATTTATGCATAAGTGCATATTCTCA
Found at i:67560 original size:65 final size:64
Alignment explanation
Indices: 67473--67609 Score: 184
Period size: 65 Copynumber: 2.1 Consensus size: 64
67463 TAACAAAATT
* * * ** * *
67473 AATATTAACTACATTGCTGCTTGAGCAGTAGCTCGAGCCGTCTAGGTAGCTCCTTAGCAAAAAAA
1 AATATTAACTACATTGCCGCTTGAGCAGTAACTCAAGCCACCTAGGGAACTCCTTAG-AAAAAAA
* *
67538 AATATTAACTACATTGCCGCTTGAGCAGTAACTCAAGCCACCTAGGGAACTCTTTAGAGAAAAA
1 AATATTAACTACATTGCCGCTTGAGCAGTAACTCAAGCCACCTAGGGAACTCCTTAGAAAAAAA
67602 AATATTAA
1 AATATTAA
67610 TCTAGTACCG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
64 14 0.22
65 49 0.78
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (64 bp):
AATATTAACTACATTGCCGCTTGAGCAGTAACTCAAGCCACCTAGGGAACTCCTTAGAAAAAAA
Found at i:68016 original size:33 final size:33
Alignment explanation
Indices: 67979--68042 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
67969 GAAGAGAAAC
67979 TCTCCCTCTCATAGATAAGGTTGAGATCTTAAG
1 TCTCCCTCTCATAGATAAGGTTGAGATCTTAAG
68012 TCTCCCTCTCATAGATAAGGTTGAGATCTTA
1 TCTCCCTCTCATAGATAAGGTTGAGATCTTA
68043 TTTACCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (33 bp):
TCTCCCTCTCATAGATAAGGTTGAGATCTTAAG
Found at i:70114 original size:29 final size:29
Alignment explanation
Indices: 70056--70122 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
70046 TTTAATAAGC
*
70056 TAAATTTTTATAATTTTTAAAGAATTAAA
1 TAAATTTTTATAATTTTTAAAGAATAAAA
* * *
70085 TCAAATTTTTATTATTTTTAGAG-CTAAAA
1 T-AAATTTTTATAATTTTTAAAGAATAAAA
70114 TATAATTTT
1 TA-AATTTT
70123 ACTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 12 0.38
30 19 0.59
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (29 bp):
TAAATTTTTATAATTTTTAAAGAATAAAA
Found at i:74002 original size:32 final size:28
Alignment explanation
Indices: 73934--74002 Score: 70
Period size: 32 Copynumber: 2.3 Consensus size: 28
73924 TTAGTCCTTA
73934 ATTTAATTTTGCCCATTTATTTATGTTT
1 ATTTAATTTTGCCCATTTATTTATGTTT
73962 -TTTAAATTTTGACCCCTATTGT-TTTAATGTTT
1 ATTT-AATTTTG--CCC-ATT-TATTT-ATGTTT
73994 ATTTAATTT
1 ATTTAATTT
74003 GGTCCCGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
30 3 0.09
31 6 0.18
32 12 0.35
33 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTTAATTTTGCCCATTTATTTATGTTT
Found at i:74150 original size:19 final size:17
Alignment explanation
Indices: 74119--74153 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
74109 ATTCTATTTA
74119 TTTATTGTTTATTTATT
1 TTTATTGTTTATTTATT
74136 TTTATATGTTGTATTTAT
1 TTTAT-TGTT-TATTTAT
74154 AATCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTATTGTTTATTTATT
Found at i:80258 original size:17 final size:18
Alignment explanation
Indices: 80238--80287 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
80228 TACTATGTAG
80238 TATGAACTGATATTTGC-
1 TATGAACTGATATTTGCA
* * *
80255 TATGAATTGTTATCT-CA
1 TATGAACTGATATTTGCA
*
80272 TATGAACTGATGTTTG
1 TATGAACTGATATTTG
80288 ATGCGAATTG
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (18 bp):
TATGAACTGATATTTGCA
Found at i:80338 original size:18 final size:18
Alignment explanation
Indices: 80288--80343 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
80278 CTGATGTTTG
80288 ATGCGAATTG-ATATTTT
1 ATGCGAATTGCATATTTT
* *
80305 ATGTG-ATCTGCCTATTTT
1 ATGCGAAT-TGCATATTTT
* *
80323 ATGCGAATTGCTTATTAT
1 ATGCGAATTGCATATTTT
80341 ATG
1 ATG
80344 TGCACTGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 21 0.68
19 2 0.06
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (18 bp):
ATGCGAATTGCATATTTT
Found at i:94665 original size:13 final size:13
Alignment explanation
Indices: 94647--94677 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
94637 TCTCACATTA
94647 AGTCACATAATTG
1 AGTCACATAATTG
94660 AGTCACATAATTG
1 AGTCACATAATTG
94673 AGTCA
1 AGTCA
94678 TTCAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
AGTCACATAATTG
Found at i:101557 original size:28 final size:29
Alignment explanation
Indices: 101513--101585 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
101503 CCTCCTAGAT
*
101513 TATT-TTTTAATTTTTTAA-AATTATATTA
1 TATTATTTTAATTATTTAATAATTATA-TA
*
101541 TATTATTTTAA-TATTTAATAATTTTATA
1 TATTATTTTAATTATTTAATAATTATATA
* *
101569 CATTA-TTTATTTATTTA
1 TATTATTTTAATTATTTA
101586 TTTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 4 0.11
28 22 0.58
29 12 0.32
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTATTTTAATTATTTAATAATTATATA
Found at i:101580 original size:4 final size:4
Alignment explanation
Indices: 101571--101596 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
101561 ATTTTATACA
101571 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
101597 TATATAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:102798 original size:71 final size:71
Alignment explanation
Indices: 102718--102941 Score: 177
Period size: 71 Copynumber: 3.3 Consensus size: 71
102708 CACTTAGATT
* * *
102718 TCACCGATTTACAATCACAACTTCATTCAACCAGTTTGTTGATTTACGATCACAACTAGTATTAT
1 TCACTGATTTACAATCACAACTACATTCAAACAGTTTGTTGATTTACGATCACAACTAGTATTAT
102783 TAAAGC
66 TAAAGC
* * * *
102789 TCACTGATTTACATTCACAACTAAATT---TCA---T-TT-ATTTACGATCATGAA-T-G-ATTC
1 TCACTGATTTACAATCACAACTACATTCAAACAGTTTGTTGATTTACGATCA-CAACTAGTATT-
* *
102843 ACTTAGAGT
64 A-TTAAAGC
* * * * **
102852 TC-GTCGATTTACGATCGCAACTCCATTCAAATTGTTTGTTGATTTACGATCACAACTAGTATTA
1 TCACT-GATTTACAATCACAACTACATTCAAACAGTTTGTTGATTTACGATCACAACTAGTATTA
102916 TTAGAA-C
65 TTA-AAGC
102923 TCACTGATTTACAATCACA
1 TCACTGATTTACAATCACA
102942 GCTTAAGATC
Statistics
Matches: 113, Mismatches: 23, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
61 3 0.03
62 3 0.03
63 36 0.32
64 4 0.04
65 1 0.01
68 2 0.02
69 1 0.01
70 4 0.04
71 52 0.46
72 4 0.04
73 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (71 bp):
TCACTGATTTACAATCACAACTACATTCAAACAGTTTGTTGATTTACGATCACAACTAGTATTAT
TAAAGC
Found at i:102889 original size:134 final size:134
Alignment explanation
Indices: 102642--103105 Score: 579
Period size: 134 Copynumber: 3.5 Consensus size: 134
102632 AAAATGGATC
* * * * * ** *
102642 GTATTATTAAAACTCACTGATTTACGATCACAACTTAAGTTTATTGATTTATGATCACAAACAAT
1 GTATTATTAAAACTCACTGATTTACAATCACAACTAAAGTTCATTAATTTACGATCATGAACGAT
* ** * * * *
102707 TCACTTAGATTTCACCGATTTACAATCACAACTTCATTCAACCAGTTTGTTGATTTACGATCACA
66 TCACTTAGAATTCGTCGATTTACGATCGCAACTCCATTCAAACAGTTTGTTGATTTACGATCACA
102772 ACTA
131 ACTA
* * * * *
102776 GTATTATTAAAGCTCACTGATTTACATTCACAACTAAATTTCATTTATTTACGATCATGAATGAT
1 GTATTATTAAAACTCACTGATTTACAATCACAACTAAAGTTCATTAATTTACGATCATGAACGAT
* **
102841 TCACTTAGAGTTCGTCGATTTACGATCGCAACTCCATTCAAATTGTTTGTTGATTTACGATCACA
66 TCACTTAGAATTCGTCGATTTACGATCGCAACTCCATTCAAACAGTTTGTTGATTTACGATCACA
102906 ACTA
131 ACTA
* * * * * *
102910 GTATTATTAGAACTCACTGATTTACAATCACAGCTTAAGATCACTAATTTATGATCATGAACGAT
1 GTATTATTAAAACTCACTGATTTACAATCACAACTAAAGTTCATTAATTTACGATCATGAACGAT
* * * *
102975 TCACTTAGAATTCGTTGATTTATGATCGCAGCTCCATTCAAACAATTTGTTGATTTACGATCACA
66 TCACTTAGAATTCGTCGATTTACGATCGCAACTCCATTCAAACAGTTTGTTGATTTACGATCACA
* *
103040 ATTG
131 ACTA
* *
103044 GTATTATTAAAACTCGCT-ATTTTACAATCACAACTTAAGTTCATTAATTTACGATCATGAAC
1 GTATTATTAAAACTCACTGA-TTTACAATCACAACTAAAGTTCATTAATTTACGATCATGAAC
103106 TACATCCAAA
Statistics
Matches: 282, Mismatches: 47, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 1 0.00
134 281 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.37
Consensus pattern (134 bp):
GTATTATTAAAACTCACTGATTTACAATCACAACTAAAGTTCATTAATTTACGATCATGAACGAT
TCACTTAGAATTCGTCGATTTACGATCGCAACTCCATTCAAACAGTTTGTTGATTTACGATCACA
ACTA
Found at i:106615 original size:20 final size:21
Alignment explanation
Indices: 106572--106622 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
106562 CAAATAATAG
* *
106572 AATATTTTTATTTTATATTTA
1 AATATTATTAATTTATATTTA
106593 AATATTATTAATTTATA-TTA
1 AATATTATTAATTTATATTTA
*
106613 AATATAATTA
1 AATATTATTA
106623 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATTATTAATTTATATTTA
Found at i:106969 original size:27 final size:30
Alignment explanation
Indices: 106917--106980 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 30
106907 TCATAAAAAA
106917 AATAATAACATTAAAATGTTACATTTCAAT
1 AATAATAACATTAAAATGTTACATTTCAAT
* *
106947 AA-AATAACA-TAAAAT-TTATATTTTAAT
1 AATAATAACATTAAAATGTTACATTTCAAT
106974 AATAATA
1 AATAATA
106981 CGGAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 12 0.39
28 10 0.32
29 7 0.23
30 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (30 bp):
AATAATAACATTAAAATGTTACATTTCAAT
Found at i:107964 original size:27 final size:27
Alignment explanation
Indices: 107901--107964 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
107891 AAAAGTCAAT
* *
107901 CAAATATTA-ATTTAATTAAAAATTAA
1 CAAATATTATTTTTAATTAAAAACTAA
* *
107927 CTAAA-AATATTTTTACTTAAAAACTAA
1 C-AAATATTATTTTTAATTAAAAACTAA
107954 CAAATATTATT
1 CAAATATTATT
107965 ATTGAAGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (27 bp):
CAAATATTATTTTTAATTAAAAACTAA
Found at i:121112 original size:28 final size:30
Alignment explanation
Indices: 121059--121135 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 30
121049 ACCTATTAAC
** *
121059 TTTGACCTATTGAC-CCGACCCTGTTGA-A
1 TTTGACCTATTGACTTTGACTCTGTTGACA
*
121087 TTTGACCTATTGACTTTGACTC-GTTGACC
1 TTTGACCTATTGACTTTGACTCTGTTGACA
*
121116 CTTGACC-ATTGACTTTGACT
1 TTTGACCTATTGACTTTGACT
121136 TTGACCGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 32 0.76
29 10 0.24
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (30 bp):
TTTGACCTATTGACTTTGACTCTGTTGACA
Found at i:121156 original size:28 final size:27
Alignment explanation
Indices: 121088--121148 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
121078 CCTGTTGAAT
121088 TTGACCTATTGACTTTGACTCGTTGACCC
1 TTGA-CTATTGACTTTGACTC-TTGACCC
* *
121117 TTGACCATTGACTTTGACT-TTGACCG
1 TTGACTATTGACTTTGACTCTTGACCC
121143 TTGACT
1 TTGACT
121149 TATTTGACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 11 0.38
28 14 0.48
29 4 0.14
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (27 bp):
TTGACTATTGACTTTGACTCTTGACCC
Found at i:123102 original size:194 final size:192
Alignment explanation
Indices: 122775--123218 Score: 570
Period size: 194 Copynumber: 2.3 Consensus size: 192
122765 TACCGGTACC
* * * * *
122775 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATACGGTACCCCAGCCATCGGTACGGT
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATACGATACCTCAACCATCGATACGGT
* * * * *
122840 GTCTGTCTGTAAACTGTCCCTAACGATGCTACTCACATGAGCTGTCGAGAATATGCATTTAAGCA
66 ATCTATCTATAAACTGTCCCTAACGATGCTACTCACACGAGCTGTCGAGAATATGCACTTAAGCA
* * *
122905 TAAATCCCAACCATCGTAGGGCCTATAATCCATT-TAAGATTCATATCTCTTTTTC-GACTCA
131 TAAATCCC-ACCATCGTAAGGCCTATAATCCATTATAAGATTCATATCTCATTTCCTGACTCA
* * * * *
122966 CGATGCTACTCACACGAGCTGTCGAGGACTCACAATATATGCAATACCTCAATCATCGATACGGT
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATACGATACCTCAACCATCGATACGGT
*
123031 ATCTATGC-ATATAACTGTTTCCCTAATGATGCTACTCACACGAGCTGTCGAGAATATGCACTTA
66 ATCTAT-CTATA-AACTG--TCCCTAACGATGCTACTCACACGAGCTGTCGAGAATATGCACTTA
* * ** *
123095 TGCATAAATCCCACCATCGTAAGGTCTATAATCCATTATTGGATTCATTTCTCATTTCCTGACTC
127 AGCATAAATCCCACCATCGTAAGGCCTATAATCCATTATAAGATTCATATCTCATTTCCTGACTC
123160 A
192 A
* * * *
123161 CGGTGCTACTCACACGAGCTGTCAAGAACTCGCAACATATACGATACCTCAGCCATCG
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATACGATACCTCAACCATCG
123219 TGTCGGTATC
Statistics
Matches: 214, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
191 61 0.29
192 6 0.03
193 23 0.11
194 69 0.32
195 55 0.26
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (192 bp):
CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATACGATACCTCAACCATCGATACGGT
ATCTATCTATAAACTGTCCCTAACGATGCTACTCACACGAGCTGTCGAGAATATGCACTTAAGCA
TAAATCCCACCATCGTAAGGCCTATAATCCATTATAAGATTCATATCTCATTTCCTGACTCA
Found at i:125603 original size:21 final size:23
Alignment explanation
Indices: 125555--125611 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
125545 CAAGTACACG
*
125555 AACTACCAATACTTCTAAATATAG
1 AACTACCAATAC-TCTAAATATAA
*
125579 AACTACCAATAC-CT-ATTATAA
1 AACTACCAATACTCTAAATATAA
*
125600 AACTACCGATAC
1 AACTACCAATAC
125612 AACCCAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.53
22 2 0.07
24 12 0.40
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.26
Consensus pattern (23 bp):
AACTACCAATACTCTAAATATAA
Found at i:127018 original size:20 final size:20
Alignment explanation
Indices: 126993--127034 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
126983 TTAACCTAAG
*
126993 CATCAAACATTCAAATCTAT
1 CATCAAACATTAAAATCTAT
127013 CATCAAACATTAAAATCTAT
1 CATCAAACATTAAAATCTAT
127033 CA
1 CA
127035 AAAGCTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (20 bp):
CATCAAACATTAAAATCTAT
Found at i:127377 original size:20 final size:20
Alignment explanation
Indices: 127341--127390 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
127331 TCATTAAGCT
*
127341 TTAATTAACCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
127361 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
127381 TTAATATAAA
1 TTAAT-TAAA
127391 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:134600 original size:26 final size:27
Alignment explanation
Indices: 134563--134632 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
134553 ATACATATTT
*
134563 AATTATTTATATTTAATCA-TATAATA
1 AATTATTAATATTTAATCATTATAATA
* * *
134589 AATTATTAATATAATTTATTATTTTAATA
1 AATTATTAATAT--TTAATCATTATAATA
134618 AATTATTTAATATTT
1 AATTA-TTAATATTT
134633 CAATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 11 0.31
28 7 0.19
29 11 0.31
30 7 0.19
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTATTAATATTTAATCATTATAATA
Found at i:134602 original size:16 final size:16
Alignment explanation
Indices: 134581--134630 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
134571 ATATTTAATC
134581 ATATAATAAATTATTA
1 ATATAATAAATTATTA
134597 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
134610 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
134627 ATAT
1 ATAT
134631 TTCAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:134606 original size:29 final size:30
Alignment explanation
Indices: 134573--134630 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
134563 AATTATTTAT
134573 ATTTAATCA-TATAATAAATTA-TTAATATA
1 ATTT-ATCATTATAATAAATTATTTAATATA
* *
134602 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
134631 TTCAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:134645 original size:20 final size:21
Alignment explanation
Indices: 134595--134645 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
134585 AATAAATTAT
* *
134595 TAATATAATTTATTATTTTAA
1 TAATATAATTTAATATTTCAA
*
134616 TAA-ATTATTTAATATTTCAA
1 TAATATAATTTAATATTTCAA
134636 TAATA-AATTT
1 TAATATAATTT
134646 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATAATTTAATATTTCAA
Found at i:134653 original size:13 final size:15
Alignment explanation
Indices: 134634--134670 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
134624 TTAATATTTC
134634 AATAATA-AATTTTA
1 AATAATATAATTTTA
134648 AA-AATAATAATTTTA
1 AATAAT-ATAATTTTA
134663 AATAATAT
1 AATAATAT
134671 TCTTCACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.15
14 3 0.15
15 11 0.55
16 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATAATTTTA
Found at i:134655 original size:16 final size:16
Alignment explanation
Indices: 134634--134669 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
134624 TTAATATTTC
134634 AATAATAAATTTTAAA-
1 AATAAT-AATTTTAAAT
134650 AATAATAATTTTAAAT
1 AATAATAATTTTAAAT
134666 AATA
1 AATA
134670 TTCTTCACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAT
Found at i:137599 original size:9 final size:9
Alignment explanation
Indices: 137587--137652 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
137577 ATTTATAAAT
137587 AAAATTATA
1 AAAATTATA
137596 AAAATTCATTA
1 AAAATT-A-TA
* *
137607 CAACTTATA
1 AAAATTATA
* *
137616 AATATTCTA
1 AAAATTATA
*
137625 ATAATTATA
1 AAAATTATA
*
137634 AAAATATTTA
1 AAAAT-TATA
137644 AAAATTATA
1 AAAATTATA
137653 TTGGTTTGGA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
9 26 0.62
10 10 0.24
11 6 0.14
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATA
Found at i:137651 original size:19 final size:20
Alignment explanation
Indices: 137615--137652 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
137605 TACAACTTAT
*
137615 AAATATTCTAATAATTATAA
1 AAATATTCTAAAAATTATAA
137635 AAATATT-TAAAAATTATA
1 AAATATTCTAAAAATTATA
137653 TTGGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATTCTAAAAATTATAA
Found at i:137966 original size:25 final size:25
Alignment explanation
Indices: 137913--137973 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
137903 TAATTAGAAT
* * *
137913 TTTTATAAGTTTCTAATTTTTCTAT
1 TTTTATAAGTTTATAAATTTTCTAA
137938 TTTTATAAGTTTATAAAATTTT-TAA
1 TTTTATAAGTTTAT-AAATTTTCTAA
137963 TTTT-TAAGTTT
1 TTTTATAAGTTT
137974 TTTATAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.22
25 19 0.59
26 6 0.19
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTTATAAGTTTATAAATTTTCTAA
Found at i:138016 original size:10 final size:9
Alignment explanation
Indices: 137910--138040 Score: 66
Period size: 8 Copynumber: 15.2 Consensus size: 9
137900 ACTTAATTAG
137910 AATTTTTAT
1 AATTTTTAT
* *
137919 AA-GTTTCT
1 AATTTTTAT
*
137927 AATTTTTCT
1 AATTTTTAT
137936 -ATTTTTAT
1 AATTTTTAT
*
137944 AA-GTTTAT
1 AATTTTTAT
*
137952 AAAATTTT-T
1 -AATTTTTAT
137961 AATTTTTA-
1 AATTTTTAT
*
137969 AGTTTTTTAT
1 A-ATTTTTAT
*
137979 AAGTTTTAT
1 AATTTTTAT
*
137988 --TTATT-T
1 AATTTTTAT
137994 -ATTTTTAT
1 AATTTTTAT
138002 -ATTTTTAT
1 AATTTTTAT
138010 AAGTTTTTAT
1 AA-TTTTTAT
*
138020 AATTTGTACT
1 AATTTTTA-T
*
138030 AAATTTTAT
1 AATTTTTAT
138039 AA
1 AA
138041 GTTTATTTAA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.01
7 7 0.07
8 34 0.36
9 32 0.34
10 20 0.21
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:139184 original size:43 final size:43
Alignment explanation
Indices: 139123--139208 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
139113 TCCCTCTCTT
139123 CAACTAACCCATTTTCGTAGCGCCTCTTTCATCTATCAAAACC
1 CAACTAACCCATTTTCGTAGCGCCTCTTTCATCTATCAAAACC
139166 CAACTAACCCATTTTCGTAGCGCCTCTTTCATCTATCAAAACC
1 CAACTAACCCATTTTCGTAGCGCCTCTTTCATCTATCAAAACC
139209 GAAGCAATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (43 bp):
CAACTAACCCATTTTCGTAGCGCCTCTTTCATCTATCAAAACC
Found at i:140175 original size:14 final size:14
Alignment explanation
Indices: 140150--140208 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
140140 ATCAACAAAA
140150 ATATAT-AA-TTTG
1 ATATATAAATTTTG
140162 ATATATAAATTTTG
1 ATATATAAATTTTG
*
140176 ATATTATACAATTAT-
1 ATA-TATA-AATTTTG
140191 ATATATAAAATTTTG
1 ATATAT-AAATTTTG
140206 ATA
1 ATA
140209 CCATTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 6 0.15
13 2 0.05
14 15 0.38
15 11 0.28
16 5 0.13
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (14 bp):
ATATATAAATTTTG
Found at i:140855 original size:24 final size:24
Alignment explanation
Indices: 140822--140896 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
140812 AGAAATAATC
* *
140822 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
140846 TTTCAATTAAATTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
140870 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTGTTTATTTG
140894 TTT
1 TTT
140897 GAGTCAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:142876 original size:22 final size:23
Alignment explanation
Indices: 142835--142883 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
142825 TGAAATTATC
* *
142835 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTC-GTTTAGTTG
142859 TTTCAATTAAACTC-TTTAGTTG
1 TTTCAATTAAACTCGTTTAGTTG
142881 TTT
1 TTT
142884 GAGTCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
24 13 0.57
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.55
Consensus pattern (23 bp):
TTTCAATTAAACTCGTTTAGTTG
Found at i:143788 original size:5 final size:5
Alignment explanation
Indices: 143782--143812 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
143772 GAGATGAAAT
*
143782 TCGAT TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
143813 ATATTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (5 bp):
TCGAA
Found at i:144684 original size:19 final size:18
Alignment explanation
Indices: 144660--144700 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
144650 TTATATCAAC
144660 AAATTTT-TTATAAAAAATA
1 AAATTTTATT-TAAAAAA-A
144679 AAATTTTATTTAAAAAAA
1 AAATTTTATTTAAAAAAA
144697 AAAT
1 AAAT
144701 AAAATGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTATTTAAAAAAA
Found at i:150776 original size:21 final size:21
Alignment explanation
Indices: 150735--150776 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
150725 ATTAACTATG
*
150735 ATTAATTAAGTTAAATTTATA
1 ATTAATTAAGTTAAATATATA
*
150756 ATTAATATAAG-TATATATATA
1 ATTAAT-TAAGTTAAATATATA
150777 CACATGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTAATTAAGTTAAATATATA
Found at i:152787 original size:6 final size:6
Alignment explanation
Indices: 152776--152803 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
152766 CTAGCTCATG
152776 ACATTC ACATTC ACATTC ACATTC ACAT
1 ACATTC ACATTC ACATTC ACATTC ACAT
152804 GCATTTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATTC
Found at i:154359 original size:123 final size:122
Alignment explanation
Indices: 153990--154343 Score: 528
Period size: 123 Copynumber: 2.9 Consensus size: 122
153980 TATTTTATTT
* * *
153990 TAATATCTCATATTAAAATGGAAATATATATCTTTAAAGAAATATATGGAAGATTTATTAAAACA
1 TAATATCTAATATTAAAATGGAAATAT-T-CCTTTAAAGAAATATATGGAAGGTTTATTAAAACA
* ** *
154055 TTATATCTTTTTTAAAAGGATATTATCTTTCATGTTTTAATATTCAATTTCCTTTTATA
64 TTATATCCTTTCCAAAAGGATATTATCTTTCATTTTTTAATATTCAATTTCCTTTTATA
* * * *
154114 TAATATATTATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAATGTTTATTAAACCATT
1 TAATATCTAATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAAACATT
*
154179 ATATCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCAATTTCCTTTTATA
66 ATATCCTTTCCAAAAGGATATTATCTTTCAT-TTTTTAATATTCAATTTCCTTTTATA
* * *
154237 TAATATCTAATATTAAAATAGAAATATTCCTTCAAATAAATATATGGAAGGTTTATTAAAACATT
1 TAATATCTAATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAAACATT
* *
154302 ATATCCTTTCCAAAAGGATATTGTCTTCCATTTTTTAATATT
66 ATATCCTTTCCAAAAGGATATTATCTTTCATTTTTTAATATT
154344 TAACAAAATC
Statistics
Matches: 208, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
122 71 0.34
123 112 0.54
124 25 0.12
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (122 bp):
TAATATCTAATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAAACATT
ATATCCTTTCCAAAAGGATATTATCTTTCATTTTTTAATATTCAATTTCCTTTTATA
Found at i:154405 original size:106 final size:106
Alignment explanation
Indices: 154273--154493 Score: 361
Period size: 106 Copynumber: 2.1 Consensus size: 106
154263 TTCCTTCAAA
* * * **
154273 TAAATATATGGAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTGTCTTCCATTTTTT
1 TAAAT-TATGAAAGGTTTATTAAAACATTATATCATTTCCAAAAAGATATTAACTTCCATTTTTT
*
154338 AATATTTAACAAAATCATTATAATTAATAATTATAATTACGT
65 AATATTTAACAAAATCATTATAATTAATAATTATAATTACAT
*
154380 TAAATTATGAAAGGTTTATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATTTTTTA
1 TAAATTATGAAAGGTTTATTAAAACATTATATCATTTCCAAAAAGATATTAACTTCCATTTTTTA
*
154445 ATATTTAATAAAATCATTATAATTAATAATTATAATTACAT
66 ATATTTAACAAAATCATTATAATTAATAATTATAATTACAT
154486 TAAATTAT
1 TAAATTAT
154494 ACTCAGTAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
106 101 0.95
107 5 0.05
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (106 bp):
TAAATTATGAAAGGTTTATTAAAACATTATATCATTTCCAAAAAGATATTAACTTCCATTTTTTA
ATATTTAACAAAATCATTATAATTAATAATTATAATTACAT
Found at i:155072 original size:18 final size:19
Alignment explanation
Indices: 155037--155077 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
155027 ATTAAATAGT
*
155037 TCGAGTTATTTGAGTTAA-
1 TCGAGTTATTAGAGTTAAC
155055 TCGAGTTATTCAGA-TTAAC
1 TCGAGTTATT-AGAGTTAAC
155074 TCGA
1 TCGA
155078 ATACAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (19 bp):
TCGAGTTATTAGAGTTAAC
Found at i:159121 original size:60 final size:60
Alignment explanation
Indices: 159048--159175 Score: 229
Period size: 60 Copynumber: 2.1 Consensus size: 60
159038 TCTGATCGAA
* *
159048 GAGGGCTCCTTCGTTTCTTTGCTTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCAACT
1 GAGGGCTCCTTCGTTTCTTTGCTTTGCTCCTTTGTTGATGGCTCTCCAAGATGGCCAACC
*
159108 GAGGTCTCCTTCGTTTCTTTGCTTTGCTCCTTTGTTGATGGCTCTCCAAGATGGCCAACC
1 GAGGGCTCCTTCGTTTCTTTGCTTTGCTCCTTTGTTGATGGCTCTCCAAGATGGCCAACC
159168 GAGGGCTC
1 GAGGGCTC
159176 TTTAAGAGGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.11, C:0.27, G:0.25, T:0.37
Consensus pattern (60 bp):
GAGGGCTCCTTCGTTTCTTTGCTTTGCTCCTTTGTTGATGGCTCTCCAAGATGGCCAACC
Found at i:159709 original size:23 final size:22
Alignment explanation
Indices: 159678--159721 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
159668 AAAGAAATAA
*
159678 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
159700 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
159722 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:171154 original size:18 final size:18
Alignment explanation
Indices: 171065--171155 Score: 128
Period size: 18 Copynumber: 5.1 Consensus size: 18
171055 GACGCGGAAG
* *
171065 TTTGAGCATACTGGATCG
1 TTTGAGCATACTGGCTCA
*
171083 TTTGAGCGTACTGGCTCA
1 TTTGAGCATACTGGCTCA
* *
171101 TTTGAGCATACTAGCTCG
1 TTTGAGCATACTGGCTCA
171119 TTTGAGCATACTGGCTCA
1 TTTGAGCATACTGGCTCA
*
171137 TTAGAGCATACTGGCTCA
1 TTTGAGCATACTGGCTCA
171155 T
1 T
171156 AAAAGCATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (18 bp):
TTTGAGCATACTGGCTCA
Found at i:171162 original size:18 final size:18
Alignment explanation
Indices: 171123--171184 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
171113 AGCTCGTTTG
* *
171123 AGCATACTGGCTCATTAG
1 AGCATACTGGCTCATAAA
171141 AGCATACTGGCTCATAAA
1 AGCATACTGGCTCATAAA
* *
171159 AGCATTATTGGCTCGTAAA
1 AGCA-TACTGGCTCATAAA
171178 AGCATAC
1 AGCATAC
171185 CCTTTCTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
18 22 0.58
19 16 0.42
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (18 bp):
AGCATACTGGCTCATAAA
Found at i:171163 original size:36 final size:37
Alignment explanation
Indices: 171091--171172 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 37
171081 CGTTTGAGCG
* * ***
171091 TACTGGCTCATTTGAGCATACTAGCTCGTTTGAGCA-
1 TACTGGCTCATTAGAGCATACTAGCTCATAAAAGCAT
*
171127 TACTGGCTCATTAGAGCATACTGGCTCATAAAAGCAT
1 TACTGGCTCATTAGAGCATACTAGCTCATAAAAGCAT
*
171164 TATTGGCTC
1 TACTGGCTC
171173 GTAAAAGCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 30 0.79
37 8 0.21
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (37 bp):
TACTGGCTCATTAGAGCATACTAGCTCATAAAAGCAT
Found at i:177435 original size:18 final size:18
Alignment explanation
Indices: 177406--177545 Score: 176
Period size: 18 Copynumber: 7.8 Consensus size: 18
177396 CTCTTGTGAT
**
177406 CCAGTAATGCTCTTACGAG
1 CCAGT-ATGCTCAAACGAG
*
177425 CCAATATGCTCAAACGAG
1 CCAGTATGCTCAAACGAG
177443 CCAGTATGCTCAAACGAG
1 CCAGTATGCTCAAACGAG
* *
177461 TCAGTATGCT-TAACGAG
1 CCAGTATGCTCAAACGAG
* *
177478 CCAGCATGCTCAAACAAG
1 CCAGTATGCTCAAACGAG
*
177496 CCATTATGCTC-AACGAG
1 CCAGTATGCTCAAACGAG
*
177513 CTAGTATGCTCAAACGAG
1 CCAGTATGCTCAAACGAG
177531 CCAGTATGCTCAAAC
1 CCAGTATGCTCAAAC
177546 TTTCGTGTCT
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
17 28 0.27
18 71 0.69
19 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (18 bp):
CCAGTATGCTCAAACGAG
Found at i:177487 original size:35 final size:35
Alignment explanation
Indices: 177406--177543 Score: 177
Period size: 35 Copynumber: 3.9 Consensus size: 35
177396 CTCTTGTGAT
** *
177406 CCAGTAATGCTCTTACGAGCCAATATGCTCAAACGAG
1 CCAGT-ATGCTCAAACGAGCCAGTATGCTC-AACGAG
* *
177443 CCAGTATGCTCAAACGAGTCAGTATGCTTAACGAG
1 CCAGTATGCTCAAACGAGCCAGTATGCTCAACGAG
* * *
177478 CCAGCATGCTCAAACAAGCCATTATGCTCAACGAG
1 CCAGTATGCTCAAACGAGCCAGTATGCTCAACGAG
*
177513 CTAGTATGCTCAAACGAGCCAGTATGCTCAA
1 CCAGTATGCTCAAACGAGCCAGTATGCTCAA
177544 ACTTTCGTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 63 0.72
36 19 0.22
37 5 0.06
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (35 bp):
CCAGTATGCTCAAACGAGCCAGTATGCTCAACGAG
Found at i:177489 original size:53 final size:53
Alignment explanation
Indices: 177420--177545 Score: 175
Period size: 53 Copynumber: 2.4 Consensus size: 53
177410 TAATGCTCTT
* * *
177420 ACGAGCCAATATGCTCAAACGAGCCAGTATGCTCAAACGAG-TCAGTATGCT-TA
1 ACGAGCCAGTATGCTCAAACAAGCCAGTATGCTC-AACGAGCT-AGTATGCTCAA
* *
177473 ACGAGCCAGCATGCTCAAACAAGCCATTATGCTCAACGAGCTAGTATGCTCAA
1 ACGAGCCAGTATGCTCAAACAAGCCAGTATGCTCAACGAGCTAGTATGCTCAA
177526 ACGAGCCAGTATGCTCAAAC
1 ACGAGCCAGTATGCTCAAAC
177546 TTTCGTGTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 14 0.22
53 51 0.78
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (53 bp):
ACGAGCCAGTATGCTCAAACAAGCCAGTATGCTCAACGAGCTAGTATGCTCAA
Found at i:180486 original size:30 final size:32
Alignment explanation
Indices: 180417--180488 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
180407 AAAATGTTAA
180417 TGAGTGACTGATTTGTCACTTTTCGATAATGT
1 TGAGTGACTGATTTGTCACTTTTCGATAATGT
* * *
180449 T-AGTGACTGATTTGTTATTTTTTGA-AA-GT
1 TGAGTGACTGATTTGTCACTTTTCGATAATGT
180478 TGAGTGACTGA
1 TGAGTGACTGA
180489 ATTGAAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 21 0.58
32 1 0.03
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (32 bp):
TGAGTGACTGATTTGTCACTTTTCGATAATGT
Found at i:182033 original size:12 final size:12
Alignment explanation
Indices: 182016--182047 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
182006 ACCTGAATAC
*
182016 AAAACTCTCTCA
1 AAAACTCTCCCA
182028 AAAACTCTCCCA
1 AAAACTCTCCCA
182040 AAAACTCT
1 AAAACTCT
182048 TCGTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAACTCTCCCA
Found at i:182898 original size:17 final size:17
Alignment explanation
Indices: 182864--182901 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
182854 AAAAAGGAAG
182864 ATTTTTTTTTTAGTTATA
1 ATTTTTTTTTTAG-TATA
182882 ATTTTTTATTTTA-TATA
1 ATTTTTT-TTTTAGTATA
182899 ATT
1 ATT
182902 GATCCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTTTTTTAGTATA
Found at i:183009 original size:16 final size:17
Alignment explanation
Indices: 182990--183031 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
182980 AAAATTTTTG
182990 AAAAAAATTATTTTATA-
1 AAAAAAATTA-TTTATAC
**
183007 AAACTAATTATTTATAC
1 AAAAAAATTATTTATAC
183024 AAAAAAAT
1 AAAAAAAT
183032 AAAGTTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAAATTATTTATAC
Found at i:186938 original size:63 final size:63
Alignment explanation
Indices: 186871--186991 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
186861 CTACCGGTAC
* * * *
186871 AGGGAATGATTACGCGTGTTGTGGTGCTTGTATAAAATAAAGTGGTGATTGT-TGTGTTGTTGT
1 AGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTG-TTGTATGTGTTGTTGT
*
186934 AGGGAATGATTACGCATGATGTAGTGCTTGTGTAAAATAAACTGGTGTTGTATGTGTT
1 AGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTGTTGTATGTGTT
186992 ACTACAGGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 4 0.08
63 48 0.92
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (63 bp):
AGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTGTTGTATGTGTTGTTGT
Found at i:187001 original size:63 final size:63
Alignment explanation
Indices: 186868--187002 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 63
186858 AATCTACCGG
* * * * **
186868 TACAGGGAATGATTACGCGTGTTGTGGTGCTTGTATAAAATAAAGTGGTGATTGTTGTGTTGT
1 TACAGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTGATTGTTGTGTTAC
** *
186931 TGTAGGGAATGATTACGCATGATGTAGTGCTTGTGTAAAATAAACTGGTG-TTGTATGTGTTAC
1 TACAGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTGATTGT-TGTGTTAC
186994 TACAGGGAA
1 TACAGGGAA
187003 CAATTTTTTG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 4 0.07
63 56 0.93
ACGTcount: A:0.27, C:0.07, G:0.30, T:0.36
Consensus pattern (63 bp):
TACAGGGAATGATTACGCATGATGTAGTGCTTGTATAAAATAAACTGGTGATTGTTGTGTTAC
Found at i:194367 original size:23 final size:23
Alignment explanation
Indices: 194337--194410 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
194327 AACCCAAACT
* *
194337 ACCGTGCTATATAAGCATACATA
1 ACCGTGCTATAAAAGCATACAAA
*
194360 ACCGTGCTATAAAATCATACAAA
1 ACCGTGCTATAAAAGCATACAAA
* * *
194383 ACTGTGCCATAAAAGCAGACAAA
1 ACCGTGCTATAAAAGCATACAAA
194406 ACCGT
1 ACCGT
194411 TGGAAGAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (23 bp):
ACCGTGCTATAAAAGCATACAAA
Found at i:210235 original size:9 final size:9
Alignment explanation
Indices: 210217--210256 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
210207 TTGCAAGAAT
*
210217 GATGATGAC
1 GATGAGGAC
210226 GATGAGGAC
1 GATGAGGAC
*
210235 GATGAGGAT
1 GATGAGGAC
*
210244 GATGAGGAT
1 GATGAGGAC
210253 GATG
1 GATG
210257 CTTCTTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.42, T:0.20
Consensus pattern (9 bp):
GATGAGGAC
Found at i:210425 original size:23 final size:23
Alignment explanation
Indices: 210399--210452 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
210389 TTGTAGGTTG
*
210399 TTTTTGGTGCAGATTTGGTATTA
1 TTTTTGGTGCAGATTTGGTACTA
* *
210422 TTTTTGGTGCAGTTTTGGTACTG
1 TTTTTGGTGCAGATTTGGTACTA
210445 TTTTTGGT
1 TTTTTGGT
210453 TTTATTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.11, C:0.06, G:0.28, T:0.56
Consensus pattern (23 bp):
TTTTTGGTGCAGATTTGGTACTA
Found at i:211994 original size:18 final size:18
Alignment explanation
Indices: 211971--212009 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
211961 TGAAAAAGAT
*
211971 AAAGAAGGATTAAAT-TGA
1 AAAGAAGG-TAAAATCTGA
211989 AAAGAAGGTAAAATCTGA
1 AAAGAAGGTAAAATCTGA
212007 AAA
1 AAA
212010 AAAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.59, C:0.03, G:0.21, T:0.18
Consensus pattern (18 bp):
AAAGAAGGTAAAATCTGA
Found at i:223526 original size:20 final size:20
Alignment explanation
Indices: 223492--223544 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
223482 TAACTCACAA
*
223492 GGGCACCG-AGATGCATACAT
1 GGGCACCGAAG-TGCATACAG
*
223512 GGGCACCGAAGTGCATATAG
1 GGGCACCGAAGTGCATACAG
*
223532 GGGCACAGAAGTG
1 GGGCACCGAAGTG
223545 TATATAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.30, C:0.21, G:0.36, T:0.13
Consensus pattern (20 bp):
GGGCACCGAAGTGCATACAG
Found at i:223549 original size:20 final size:20
Alignment explanation
Indices: 223512--223553 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
223502 ATGCATACAT
*
223512 GGGCACCGAAGTGCATATAG
1 GGGCACAGAAGTGCATATAG
*
223532 GGGCACAGAAGTGTATATAG
1 GGGCACAGAAGTGCATATAG
223552 GG
1 GG
223554 TTGAAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.38, T:0.17
Consensus pattern (20 bp):
GGGCACAGAAGTGCATATAG
Found at i:227371 original size:20 final size:20
Alignment explanation
Indices: 227286--227371 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
227276 TAACAAACAA
*
227286 GGGCACTGAGGTGCATACAG
1 GGGCACTGAAGTGCATACAG
* *
227306 GGGCA-TAAAAGTGAATACAG
1 GGGCACT-GAAGTGCATACAG
* *
227326 GGGCA-TCAGAGTGCATACAA
1 GGGCACTGA-AGTGCATACAG
227346 GGGCACTGAAGTGCATACAG
1 GGGCACTGAAGTGCATACAG
227366 GGGCAC
1 GGGCAC
227372 AATTACATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.14
Consensus pattern (20 bp):
GGGCACTGAAGTGCATACAG
Found at i:235434 original size:21 final size:21
Alignment explanation
Indices: 235408--235467 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
235398 TCAGCAGACT
* *
235408 CAGATGCATCCACAACAAAGC
1 CAGATGCAGCCACAACAAAAC
* *
235429 CAGATGCAGCCACACCAAAAT
1 CAGATGCAGCCACAACAAAAC
235450 CAGATGCAGCCACAACAA
1 CAGATGCAGCCACAACAA
235468 TCTTCAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.33, G:0.15, T:0.08
Consensus pattern (21 bp):
CAGATGCAGCCACAACAAAAC
Found at i:249325 original size:21 final size:21
Alignment explanation
Indices: 249299--249338 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
249289 ATTATTTTCA
249299 TTAAAAATTAATTTTAATCTC
1 TTAAAAATTAATTTTAATCTC
249320 TTAAAAATTAATTTTAATC
1 TTAAAAATTAATTTTAATC
249339 CCACATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAATTAATTTTAATCTC
Found at i:252464 original size:7 final size:7
Alignment explanation
Indices: 252448--252494 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
252438 TAATTGAAAA
*
252448 GTCAACG
1 GTCAATG
252455 GTCAATG
1 GTCAATG
*
252462 GTCAATA
1 GTCAATG
*
252469 GTCAACG
1 GTCAATG
252476 GTCAATG
1 GTCAATG
*
252483 GTCAATA
1 GTCAATG
252490 GTCAA
1 GTCAA
252495 CGAGTCAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (7 bp):
GTCAATG
Found at i:252472 original size:21 final size:21
Alignment explanation
Indices: 252447--252502 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
252437 TTAATTGAAA
252447 AGTCAACGGTCAATGGTCAAT
1 AGTCAACGGTCAATGGTCAAT
252468 AGTCAACGGTCAATGGTCAAT
1 AGTCAACGGTCAATGGTCAAT
252489 AGTCAACGAGTCAA
1 AGTCAACG-GTCAA
252503 GTTGGGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (21 bp):
AGTCAACGGTCAATGGTCAAT
Found at i:255826 original size:29 final size:29
Alignment explanation
Indices: 255784--255850 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
255774 CATATGATAA
* *
255784 CACAACACAGAGTAACATTACACAAATGG
1 CACAACACAGAGTAACATCACACAAATAG
*
255813 CACAACACAGAGTAACATCACATAAATAG
1 CACAACACAGAGTAACATCACACAAATAG
255842 CACAACACA
1 CACAACACA
255851 TATGTAGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.51, C:0.27, G:0.10, T:0.12
Consensus pattern (29 bp):
CACAACACAGAGTAACATCACACAAATAG
Found at i:261429 original size:12 final size:11
Alignment explanation
Indices: 261410--261468 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 11
261400 TTTTGTAGAT
261410 TTTTGGTGTTG
1 TTTTGGTGTTG
*
261421 TTGTTGGTGCTG
1 TT-TTGGTGTTG
*
261433 TTTTTTGTGTTG
1 -TTTTGGTGTTG
261445 -TTTGGTGTTG
1 TTTTGGTGTTG
**
261455 TTTTATTGTTG
1 TTTTGGTGTTG
261466 TTT
1 TTT
261469 CGCAACTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.23
11 13 0.33
12 15 0.38
13 2 0.05
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.66
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:261467 original size:24 final size:22
Alignment explanation
Indices: 261416--261467 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
261406 AGATTTTTGG
261416 TGTTGTTGTTGGTGCTGTTTTT
1 TGTTGTTGTTGGTGCTGTTTTT
*
261438 TG-TGTTGTTTGGTGTTGTTTTAT
1 TGTTGTTG-TTGGTGCTGTTTT-T
261461 TGTTGTT
1 TGTTGTT
261468 TCGCAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 3 0.12
24 4 0.15
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.65
Consensus pattern (22 bp):
TGTTGTTGTTGGTGCTGTTTTT
Found at i:261468 original size:21 final size:21
Alignment explanation
Indices: 261418--261468 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
261408 ATTTTTGGTG
*
261418 TTGTTG-TTGGTGCTGTTTTT
1 TTGTTGTTTGGTGCTGTTTTA
*
261438 TGTGTTGTTTGGTGTTGTTTTA
1 T-TGTTGTTTGGTGCTGTTTTA
261460 TTGTTGTTT
1 TTGTTGTTT
261469 CGCAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 13 0.48
22 13 0.48
ACGTcount: A:0.02, C:0.02, G:0.29, T:0.67
Consensus pattern (21 bp):
TTGTTGTTTGGTGCTGTTTTA
Found at i:262400 original size:18 final size:19
Alignment explanation
Indices: 262362--262401 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
262352 AATAAATGTG
*
262362 TTATTTTCAAGTTTTTATT
1 TTATTTTCAAGTTTATATT
*
262381 TTATTTTTAA-TTTATATT
1 TTATTTTCAAGTTTATATT
262399 TTA
1 TTA
262402 ATTAATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTATTTTCAAGTTTATATT
Found at i:262800 original size:17 final size:19
Alignment explanation
Indices: 262772--262829 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
262762 ATAATGAATA
262772 TATGTGAAATATTTATTTT
1 TATGTGAAATATTTATTTT
262791 TA-GT-AAATATAATT-TTTT
1 TATGTGAAATAT--TTATTTT
262809 ATATGTGAAATATTTATTTT
1 -TATGTGAAATATTTATTTT
262829 T
1 T
262830 CAATCTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
17 6 0.18
18 6 0.18
19 9 0.27
20 6 0.18
21 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TATGTGAAATATTTATTTT
Found at i:262828 original size:21 final size:21
Alignment explanation
Indices: 262770--262829 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
262760 ATATAATGAA
262770 TATATGTGAAATATTTA-TTT
1 TATATGTGAAATATTTATTTT
*
262790 T-TA-GT-AAATA-TAATTTTT
1 TATATGTGAAATATTTA-TTTT
262808 TATATGTGAAATATTTATTTT
1 TATATGTGAAATATTTATTTT
262829 T
1 T
262830 CAATCTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 6 0.19
19 4 0.12
20 3 0.09
21 10 0.31
22 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (21 bp):
TATATGTGAAATATTTATTTT
Found at i:262933 original size:15 final size:16
Alignment explanation
Indices: 262895--262936 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
262885 TTGAAATAAT
*
262895 TATTTAAAATATTTCA
1 TATTTAAAATAATTCA
* *
262911 TATATAAAA-AATTGA
1 TATTTAAAATAATTCA
262926 TATTTAAAATA
1 TATTTAAAATA
262937 TTTTAGGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TATTTAAAATAATTCA
Found at i:263149 original size:54 final size:54
Alignment explanation
Indices: 263084--263192 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
263074 AAAAATAAAA
*
263084 TATTTATAACATAACAATACATATAATATACATTTTCAGTATATAACTACATAT
1 TATTTATAACATAACAATACATATAATATACATTTTCAGTATATAACCACATAT
* * * * * *
263138 TATTTGTAACATAACCATATATATAATATATATTTTTATTATATAACCACATAT
1 TATTTATAACATAACAATACATATAATATACATTTTCAGTATATAACCACATAT
263192 T
1 T
263193 TTTTTTATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (54 bp):
TATTTATAACATAACAATACATATAATATACATTTTCAGTATATAACCACATAT
Found at i:263379 original size:42 final size:43
Alignment explanation
Indices: 263302--263388 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 43
263292 TTATTTATAT
263302 AAATAAAAGTGTTATAATTTAAAAATAAAATAAAAAAACTTGA
1 AAATAAAAGTGTTATAATTTAAAAATAAAATAAAAAAACTTGA
*
263345 AAATAAATGT-TTATTAA-TTAAAAATTAAAA-AAAAAAACTTGA
1 AAATAAAAGTGTTA-TAATTTAAAAA-TAAAATAAAAAAACTTGA
263387 AA
1 AA
263389 CAACATGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (43 bp):
AAATAAAAGTGTTATAATTTAAAAATAAAATAAAAAAACTTGA
Found at i:263700 original size:25 final size:25
Alignment explanation
Indices: 263665--263721 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
263655 TTTTAGAAAA
*
263665 TAAAAAAAATAGAAAATAT-ATTTTT
1 TAAAAAAAATA-AAAAAATGATTTTT
* *
263690 TAAAAATAATAAAAAAATGTTTTTT
1 TAAAAAAAATAAAAAAATGATTTTT
263715 TAAAAAA
1 TAAAAAA
263722 GGAGAGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAAAAATAAAAAAATGATTTTT
Found at i:269692 original size:25 final size:25
Alignment explanation
Indices: 269664--269743 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
269654 ACCTTTTATC
269664 CTTTTTACGAGCTTCTTTCAATACT
1 CTTTTTACGAGCTTCTTTCAATACT
*
269689 CTTTTT-C---CTTCGTTTGTCAA-AAT
1 CTTTTTACGAGCTTC--TT-TCAATACT
*
269712 CCTTTTTACGAGTTTCTTTCAATACT
1 -CTTTTTACGAGCTTCTTTCAATACT
269738 CTTTTT
1 CTTTTT
269744 CCTTCGTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
21 4 0.09
23 4 0.09
24 11 0.26
25 17 0.40
26 4 0.09
28 3 0.07
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (25 bp):
CTTTTTACGAGCTTCTTTCAATACT
Found at i:269733 original size:49 final size:49
Alignment explanation
Indices: 269661--269758 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
269651 ATAACCTTTT
269661 ATCCTTTTTACGAGCTTCTTTCAATACTCTTTTTCCTTCGTTTGTCAAA
1 ATCCTTTTTACGAGCTTCTTTCAATACTCTTTTTCCTTCGTTTGTCAAA
*
269710 ATCCTTTTTACGAGTTTCTTTCAATACTCTTTTTCCTTCGTTTGTCAAA
1 ATCCTTTTTACGAGCTTCTTTCAATACTCTTTTTCCTTCGTTTGTCAAA
269759 GCCGCTTTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.18, C:0.23, G:0.08, T:0.50
Consensus pattern (49 bp):
ATCCTTTTTACGAGCTTCTTTCAATACTCTTTTTCCTTCGTTTGTCAAA
Found at i:269752 original size:26 final size:26
Alignment explanation
Indices: 269676--269752 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 26
269666 TTTTACGAGC
269676 TTCTTTCAATACTCTTTTTCCTTCG-
1 TTCTTTCAATACTCTTTTTCCTTCGT
* * * **
269701 TT-TGTCAA-AATCCTTTTTAC-GAGT
1 TTCTTTCAATACT-CTTTTTCCTTCGT
269725 TTCTTTCAATACTCTTTTTCCTTCGT
1 TTCTTTCAATACTCTTTTTCCTTCGT
269751 TT
1 TT
269753 GTCAAAGCCG
Statistics
Matches: 37, Mismatches: 10, Indels: 9
0.66 0.18 0.16
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 14 0.38
26 6 0.16
ACGTcount: A:0.16, C:0.23, G:0.06, T:0.55
Consensus pattern (26 bp):
TTCTTTCAATACTCTTTTTCCTTCGT
Found at i:272359 original size:26 final size:26
Alignment explanation
Indices: 272293--272362 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
272283 TCACATCGGT
* *
272293 ATTTTACCCTAA-CAAAATTTTGACG
1 ATTTTACCCTAAGTAAAATTTTGACA
*
272318 ATTTTACCACT-GGTAAAATTTTGACA
1 ATTTTACC-CTAAGTAAAATTTTGACA
*
272344 ATTTTGCCCTAAGTAAAAT
1 ATTTTACCCTAAGTAAAAT
272363 GTCGAGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (26 bp):
ATTTTACCCTAAGTAAAATTTTGACA
Found at i:282922 original size:9 final size:9
Alignment explanation
Indices: 282910--282939 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
282900 TTTATTTGGT
282910 TTATTCGAA
1 TTATTCGAA
*
282919 TTATTCGAG
1 TTATTCGAA
282928 TTATTCGAA
1 TTATTCGAA
282937 TTA
1 TTA
282940 GAAAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:283319 original size:16 final size:16
Alignment explanation
Indices: 283292--283338 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
283282 ATGTGGATTT
283292 TTTTTTACTTTTATAAA
1 TTTTTTA-TTTTATAAA
283309 TTTTTTATTTT-TAAA
1 TTTTTTATTTTATAAA
*
283324 TAATTCTTATTTTAT
1 T--TTTTTATTTTAT
283339 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 4 0.15
17 16 0.62
18 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTATTTTATAAA
Found at i:283323 original size:15 final size:17
Alignment explanation
Indices: 283292--283324 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
283282 ATGTGGATTT
283292 TTTTTTACTTTTATAAA
1 TTTTTTACTTTTATAAA
283309 TTTTTTA-TTTT-TAAA
1 TTTTTTACTTTTATAAA
283324 T
1 T
283325 AATTCTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTACTTTTATAAA
Found at i:287663 original size:94 final size:94
Alignment explanation
Indices: 287502--287691 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
287492 ATAGTTATGA
287502 ATTGTGTATCCTCTTCATCAATGCAATTGTTATGGAATGGTTCGCTTACTGAAAAATTTACTCCG
1 ATTGTGTATCCTCTTCATCAATGCAATTGTTATGGAATGGTTCGCTTACTGAAAAATTTACTCCG
287567 AAAAGGGGAATACAGAAGGGGGATCCCCT
66 AAAAGGGGAATACAGAAGGGGGATCCCCT
287596 ATTGTGTATCCTCTTCATCAATGCAATTGTTATGGAATGGTTCGCTTACTGAAAAATTTACTCCG
1 ATTGTGTATCCTCTTCATCAATGCAATTGTTATGGAATGGTTCGCTTACTGAAAAATTTACTCCG
287661 AAAAGGGGAATACAGAAGGGGGATCCCCT
66 AAAAGGGGAATACAGAAGGGGGATCCCCT
287690 AT
1 AT
287692 CTCCTTTTTC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (94 bp):
ATTGTGTATCCTCTTCATCAATGCAATTGTTATGGAATGGTTCGCTTACTGAAAAATTTACTCCG
AAAAGGGGAATACAGAAGGGGGATCCCCT
Found at i:297966 original size:29 final size:30
Alignment explanation
Indices: 297923--297987 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
297913 TAAATAACAA
* * *
297923 AATTTTTGTATAACTTTTTATTGTTTTTAT
1 AATTTTTGTATAACTTTTTAATATTTTGAT
297953 AATTTTT-TATAACTTTTTAATATTTTGAT
1 AATTTTTGTATAACTTTTTAATATTTTGAT
297982 AATTTT
1 AATTTT
297988 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (30 bp):
AATTTTTGTATAACTTTTTAATATTTTGAT
Found at i:298769 original size:21 final size:23
Alignment explanation
Indices: 298744--298795 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
298734 AATGTTGATA
298744 TTTTAAATCAA-C-TTTTAAATT
1 TTTTAAATCAACCATTTTAAATT
* * *
298765 TTTTATATTAACCATTTTAATTT
1 TTTTAAATCAACCATTTTAAATT
298788 TTTTAAAT
1 TTTTAAAT
298796 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAAATCAACCATTTTAAATT
Found at i:305766 original size:83 final size:82
Alignment explanation
Indices: 305659--305818 Score: 189
Period size: 83 Copynumber: 1.9 Consensus size: 82
305649 GTCATATCCA
** * * * *
305659 CTTAAAATGATAAATTTTTAATTTAGATCTTTTATAATTTATAAAATTTTAAATTAATAATAAT-
1 CTTAAAATGATAAAAATTTAATTTA-ATC-TTTAAAAATTATAAAAATATAAATTAATAA-AATG
305723 A-AAATTATATTTTGACCAT
63 AGAAATTATATTTTGACCAT
* * *
305742 CTTAAAATGATAAAAATTTGATTTACTCTTTAAAAATTATAAAAATATAAATTATTAAAATGATG
1 CTTAAAATGATAAAAATTTAATTTAATCTTTAAAAATTATAAAAATATAAATTAATAAAATGA-G
305807 AAATTATATTTT
65 AAATTATATTTT
305819 TATATAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.05
81 26 0.40
82 2 0.03
83 34 0.52
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (82 bp):
CTTAAAATGATAAAAATTTAATTTAATCTTTAAAAATTATAAAAATATAAATTAATAAAATGAGA
AATTATATTTTGACCAT
Done.